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Eric Coissac 01c5880ace First version including the rRNA detector

Former-commit-id: 865e2626c7cd92ea596aedefe2b760b3eaaa9c77
Former-commit-id: 94a2e642328eb679660c6ac5a6cb6803c2083632

2015-10-12 07:15:08 -03:00

RRNA_4_5S

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

RRNA_5S

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

RRNA_16S

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

RRNA_23S

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

4.5S.goodali.fst

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

5S.goodali.fst

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

16S.goodali.fst

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

23S.goodali.fst

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

plast_RRNA.hmm

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

README

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

rRNA_models.log

First version including the rRNA detector

2015-10-12 07:15:08 -03:00

README

Commands used to build the plast_RRNA.hmm

hmmbuild --dna -n RRNA_23S  --wpb plast_RRNA_23S.hmm  23S.goodali.fst
hmmbuild --dna -n RRNA_16S  --wpb plast_RRNA_16S.hmm  16S.goodali.fst
hmmbuild --dna -n RRNA_5S   --wpb plast_RRNA_5S.hmm   5S.goodali.fst
hmmbuild --dna -n RRNA_4.5S --wpb plast_RRNA_4.5S.hmm 4.5S.goodali.fst

revcomp 23S.goodali.fst  > 23S.goodali.rc.fst
revcomp 16S.goodali.fst  > 16S.goodali.rc.fst
revcomp 5S.goodali.fst   > 5S.goodali.rc.fst
revcomp 4.5S.goodali.fst > 4.5S.goodali.rc.fst

hmmbuild --dna -n RRNA_23S_RC  --wpb plast_RRNA_23S_RC.hmm 23S.goodali.rc.fst
hmmbuild --dna -n RRNA_16S_RC  --wpb plast_RRNA_16S_RC.hmm 16S.goodali.rc.fst
hmmbuild --dna -n RRNA_5S_RC   --wpb plast_RRNA_5S_RC.hmm 5S.goodali.rc.fst
hmmbuild --dna -n RRNA_4.5S_RC --wpb plast_RRNA_4.5S_RC.hmm 4.5S.goodali.rc.fst

cat plast_RRNA_*.hmm > plast_RRNA.hmm